RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4401
(147 letters)
>2hfh_A Genesis, HFH-2; HNF-3 homologues, winged helix protein; NMR {Rattus
norvegicus} SCOP: a.4.5.14
Length = 109
Score = 82.4 bits (204), Expect = 2e-21
Identities = 28/59 (47%), Positives = 31/59 (52%), Gaps = 3/59 (5%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD---LQKLEEGGGRYRNVRRKSSDIQHR 59
NSIRHNLSLN CFVK+PR PGKG +W LD + G R R K H
Sbjct: 49 NSIRHNLSLNDCFVKIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRKRFKRLQHHHH 107
>1vtn_C HNF-3/FORK head DNA-recognition motif; protein-DNA complex, double
helix, transcription-DNA complex; HET: DNA; 2.50A {Homo
sapiens} PDB: 1d5v_A
Length = 102
Score = 81.2 bits (201), Expect = 4e-21
Identities = 27/52 (51%), Positives = 30/52 (57%), Gaps = 3/52 (5%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD---LQKLEEGGGRYRNVRRK 52
NSIRH+LS N CFVKV RS D+PGKG +W L E G R R K
Sbjct: 49 NSIRHSLSFNDCFVKVARSPDKPGKGSYWALHPSSGNMFENGCYLRRQKRFK 100
>2hdc_A Protein (transcription factor); structure, dyanamics, genesis,
winged helix protein, protein/DNA complex; HET: DNA;
NMR {Rattus norvegicus} SCOP: a.4.5.14
Length = 97
Score = 78.1 bits (193), Expect = 6e-20
Identities = 26/50 (52%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD---LQKLEEGGGRYRNVR 50
NSIRHNLSLN CFVK+PR PGKG +W LD + G R R
Sbjct: 48 NSIRHNLSLNDCFVKIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRKR 97
>2c6y_A Forkhead box protein K2; transcription regulation, DNA-binding
domain, forkhead transcription factors, interleukin
enhancer binding factor; 2.4A {Homo sapiens} SCOP:
a.4.5.14 PDB: 1jxs_A 2a3s_A 2d2w_A
Length = 111
Score = 78.1 bits (193), Expect = 6e-20
Identities = 23/32 (71%), Positives = 30/32 (93%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD 35
NSIRHNLSLN+ F+KVPRS+++PGKG FW++D
Sbjct: 62 NSIRHNLSLNRYFIKVPRSQEEPGKGSFWRID 93
>1kq8_A HFH-1, hepatocyte nuclear factor 3 forkhead homolog 1, winged;
winged helix protein, structure, transcription; NMR
{Rattus norvegicus} SCOP: a.4.5.14
Length = 100
Score = 72.7 bits (179), Expect = 6e-18
Identities = 24/55 (43%), Positives = 31/55 (56%), Gaps = 6/55 (10%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQP-GKGGFWKLD---LQKLEEGGGRYRNVRRKSS 54
NS+RHNLSLN CFVKV R +P GK +W L+ +G +R R + S
Sbjct: 48 NSVRHNLSLNDCFVKVLRDPSRPWGKDNYWMLNPNSEYTFADGV--FRRRRYRLS 100
>3g73_A Forkhead box protein M1; DNA-binding domain, forkhead transcription
factors, FOXM1, W helix; HET: DNA; 2.21A {Homo sapiens}
Length = 142
Score = 72.6 bits (178), Expect = 2e-17
Identities = 22/76 (28%), Positives = 29/76 (38%), Gaps = 7/76 (9%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD---LQKLEEGGGRYRNVRRKSSDIQHRK 60
NSIRHNLSL+ FV+ GK FW + + L +H +
Sbjct: 65 NSIRHNLSLHDMFVRET---SANGKVSFWTIHPSANRYLTLDQVFKPLDPGSPQLPEHLE 121
Query: 61 -QAHRPKPAPSENLNT 75
Q RP P N+
Sbjct: 122 SQQKRPNPELRRNMTI 137
>1e17_A AFX; DNA binding domain, winged helix; NMR {Homo sapiens} SCOP:
a.4.5.14
Length = 150
Score = 69.6 bits (170), Expect = 3e-16
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLDLQKLEEGGGRYRNVRRKSSDIQHRKQAH 63
NSIRHNLSL+ F+KV + GK +W L+ + + G R S + +
Sbjct: 91 NSIRHNLSLHSKFIKVHN--EATGKSSWWMLNPEGGKSGKAPRRRAASMDSSSKLLRGRS 148
Query: 64 R 64
+
Sbjct: 149 K 149
>3bpy_A FORK head domain, forkhead transcription factor FOXO4, DNA
binding domain; forkhead BOX, winged helix; 1.87A {Homo
sapiens} SCOP: a.4.5.14
Length = 85
Score = 66.6 bits (163), Expect = 1e-15
Identities = 16/32 (50%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD 35
NSIRHNLSL+ F+KV + GK +W L+
Sbjct: 56 NSIRHNLSLHSKFIKVHN--EATGKSSWWMLN 85
>3coa_C Forkhead box protein O1; winged helix, forkhead domain, chromosomal
rearrangement; HET: DNA; 2.20A {Homo sapiens} PDB:
3co7_C* 2k86_A 2uzk_A
Length = 117
Score = 67.1 bits (164), Expect = 2e-15
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLDLQKLEEGGGRYRNVRRKSSDIQHRK 60
NSIRHNLSL+ F++V + GK +W L+ + + G R ++ + K
Sbjct: 62 NSIRHNLSLHSKFIRVQN--EGTGKSSWWMLNPEGGKSGKSPRRRAASMDNNSKFAK 116
>2a07_F Forkhead box protein P2; double-helix, swapping, homodimer,
monomer, winged-helix, magnesium, transcription/DNA
complex; 1.90A {Homo sapiens} SCOP: a.4.5.14 PDB:
2as5_F 2kiu_A 3qrf_F
Length = 93
Score = 64.2 bits (157), Expect = 1e-14
Identities = 16/32 (50%), Positives = 21/32 (65%), Gaps = 5/32 (15%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD 35
N++RHNLSL+KCFV+V KG W +D
Sbjct: 49 NAVRHNLSLHKCFVRVEN-----VKGAVWTVD 75
>3l2c_A Forkhead box protein O4; winged helix, transcription-DNA COMP;
1.87A {Homo sapiens} PDB: 3co6_C*
Length = 110
Score = 64.8 bits (158), Expect = 1e-14
Identities = 16/32 (50%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD 35
NSIRHNLSL+ F+KV + GK +W L+
Sbjct: 75 NSIRHNLSLHSKFIKVHN--EATGKSSWWMLN 104
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 31.2 bits (70), Expect = 0.14
Identities = 27/157 (17%), Positives = 45/157 (28%), Gaps = 60/157 (38%)
Query: 3 VNSIRHNLSLNKCFVKV---PRSKDQPGKGGFWKLDLQKLEEGGGRYRNVRRKSSDIQHR 59
VN ++ V V P+S L L R + S Q R
Sbjct: 371 VNGAKN-------LV-VSGPPQS-------------LYGLNL---TLRKAKAPSGLDQSR 406
Query: 60 KQAHRPKPAPSEN-LNTAYTNNNSIAPGENLNKLEDKLDDTLMESEISMTDDIDEDLILS 118
K S L A +P L+ +D I++DL+ +
Sbjct: 407 IPFSERKLKFSNRFLPVA-------SP----------FHSHLLV---PASDLINKDLVKN 446
Query: 119 NILLSGDSYWIHEP----------EHISPDLLDSLLD 145
N+ + I P +S + + ++D
Sbjct: 447 NVSFNAKD--IQIPVYDTFDGSDLRVLSGSISERIVD 481
Score = 28.5 bits (63), Expect = 1.1
Identities = 16/78 (20%), Positives = 30/78 (38%), Gaps = 11/78 (14%)
Query: 57 QHRKQAHRPKPAPSENLNTAYTNNNSIAPGENLNKLEDKLDDTLMESEISMTDDIDEDLI 116
Q ++Q ++ P P+E ++ P E + K + + S++ D + L
Sbjct: 32 QLQEQFNKILPEPTEGFA---ADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLN-LC 87
Query: 117 L----SNILLSGDSYWIH 130
L + L D IH
Sbjct: 88 LTEFENCYLEGND---IH 102
>2ozb_B U4/U6 small nuclear ribonucleoprotein PRP31; RNA-protein complex,
ribonucleoprotein particle (RNP), PRE-M splicing, U4/U6
DI-snRNA, U4/U6 DI-snRNP; 2.60A {Homo sapiens} SCOP:
a.183.1.1 PDB: 3siu_B 3siv_B
Length = 260
Score = 28.1 bits (62), Expect = 0.89
Identities = 9/50 (18%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 84 APGENLNKLEDKLDDTLMESEISMTDDIDEDLILSNILLSGDSYWIHEPE 133
E + +E + ++ ++T +I+ +L + + + D Y PE
Sbjct: 3 LGSEVMGPVEAAPEYRVIVDANNLTVEIENELNIIHKFIR-DKYSKRFPE 51
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 26.1 bits (56), Expect = 3.7
Identities = 7/42 (16%), Positives = 14/42 (33%), Gaps = 17/42 (40%)
Query: 33 KLDLQKLEEGGGRYRNVRRKSSDIQHRKQAHRPKPAPSENLN 74
K L+KL+ +S + + AP+ +
Sbjct: 19 KQALKKLQ------------AS-----LKLYADDSAPALAIK 43
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.313 0.134 0.393
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,179,856
Number of extensions: 116134
Number of successful extensions: 174
Number of sequences better than 10.0: 1
Number of HSP's gapped: 166
Number of HSP's successfully gapped: 23
Length of query: 147
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 62
Effective length of database: 4,328,508
Effective search space: 268367496
Effective search space used: 268367496
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.4 bits)